<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Dear All,<div class=""><br class=""></div><div class="">For all that might be interested in gene regulation,</div><div class=""><br class=""></div><div class="">Robert</div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">Begin forwarded message:</div><br class="Apple-interchange-newline"><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">From: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">Ivo Grosse <<a href="mailto:grosse@informatik.uni-halle.de" class="">grosse@informatik.uni-halle.de</a>><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Subject: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class=""><b class="">Fwd: Institutskolloquium am 20. Juni 2019</b><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">Date: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">15 June 2019 at 14:41:37 CEST<br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif; color:rgba(0, 0, 0, 1.0);" class=""><b class="">To: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">Sven-Erik Behrens <<a href="mailto:sven.behrens@biochemtech.uni-halle.de" class="">sven.behrens@biochemtech.uni-halle.de</a>>, Robert Paxton <<a href="mailto:robert.paxton@zoologie.uni-halle.de" class="">robert.paxton@zoologie.uni-halle.de</a>>, Wolfgang Sippl <<a href="mailto:wolfgang.sippl@pharmazie.uni-halle.de" class="">wolfgang.sippl@pharmazie.uni-halle.de</a>>, Christiane Tammer <<a href="mailto:christiane.tammer@mathematik.uni-halle.de" class="">christiane.tammer@mathematik.uni-halle.de</a>>, Wolfgang Paul <<a href="mailto:wolfgang.paul@physik.uni-halle.de" class="">wolfgang.paul@physik.uni-halle.de</a>>, Michael Bron <<a href="mailto:michael.bron@chemie.uni-halle.de" class="">michael.bron@chemie.uni-halle.de</a>>, Marcel Quint <<a href="mailto:marcel.quint@landw.uni-halle.de" class="">marcel.quint@landw.uni-halle.de</a>>, Gabriele Stangl <<a href="mailto:gabriele.stangl@landw.uni-halle.de" class="">gabriele.stangl@landw.uni-halle.de</a>>, Christine Fürst <<a href="mailto:christine.fuerst@geo.uni-halle.de" class="">christine.fuerst@geo.uni-halle.de</a>>, Steffen Neumann <<a href="mailto:sneumann@ipb-halle.de" class="">sneumann@ipb-halle.de</a>>, Jens Freitag <<a href="mailto:freitagj@ipk-gatersleben.de" class="">freitagj@ipk-gatersleben.de</a>>, François Buscot <<a href="mailto:francois.buscot@ufz.de" class="">francois.buscot@ufz.de</a>><br class=""></span></div><br class=""><div class=""><meta http-equiv="Content-Type" content="text/html; charset=utf-8" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Dear colleagues,<div class=""><br class=""></div><div class="">could you please forward this announcement to potentially interested people at your institutes?</div><div class=""><br class=""></div><div class="">Have a great weekend and a great week,</div><div class=""><br class=""></div><div class="">Ivo<br class=""><div class=""><br class=""><blockquote type="cite" class=""><div class="">Begin forwarded message:</div><br class="Apple-interchange-newline"><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, "Helvetica Neue", Helvetica, sans-serif;" class=""><b class="">From: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">Ivo Grosse <<a href="mailto:grosse@informatik.uni-halle.de" class="">grosse@informatik.uni-halle.de</a>><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, "Helvetica Neue", Helvetica, sans-serif;" class=""><b class="">Subject: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class=""><b class="">Institutskolloquium am 20. Juni 2019</b><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, "Helvetica Neue", Helvetica, sans-serif;" class=""><b class="">Date: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">15. June 2019 at 14:23:38 CEST<br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, "Helvetica Neue", Helvetica, sans-serif;" class=""><b class="">To: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">Umlauf Informatik <<a href="mailto:umlauf@informatik.uni-halle.de" class="">umlauf@informatik.uni-halle.de</a>><br class=""></span></div><div style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px;" class=""><span style="font-family: -webkit-system-font, "Helvetica Neue", Helvetica, sans-serif;" class=""><b class="">Cc: </b></span><span style="font-family: -webkit-system-font, Helvetica Neue, Helvetica, sans-serif;" class="">Fachschaftsrat <<a href="mailto:fachschaft@mathinf.uni-halle.de" class="">fachschaft@mathinf.uni-halle.de</a>><br class=""></span></div><br class=""><div class=""><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; background-color: rgb(255, 255, 255); text-decoration: none; float: none; display: inline !important;" class="">Im Rahmen eines</span><br class="" style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; background-color: rgb(255, 255, 255); text-decoration: none;"><div class="" style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; background-color: rgb(255, 255, 255); text-decoration: none;"><br class=""><div class=""><div class=""><div text="#000000" bgcolor="#FFFFFF" class=""><div class="" align="center"><b class="">Kolloquiums</b></div><div class="" align="center">des Instituts für Informatik<br class=""></div><div text="#000000" bgcolor="#FFFFFF" class=""><br class=""></div>hält</div><div text="#000000" bgcolor="#FFFFFF" class=""><br class=""><div class="" align="center"><b class="">Herr P<span class="" style="font-style: normal;">rof. Dr. </span></b><span class="" style="text-align: start; font-style: normal;"><b class="">Matthew T. Weirauch</b></span><br class="">(<span class="" style="caret-color: rgba(0, 0, 0, 0.870588); background-color: rgb(255, 255, 255);">University of Cincinnati and </span>Cincinnati Children’s Hospital, Cincinnati, Ohio, USA)</div><div class="" style="text-align: left;"><br class=""></div><div class="" style="text-align: left;">einen Vortrag zum Thema:</div><div class="" style="text-align: left;"><br class=""></div><div class="" style="text-align: center;"><b class="">Computational Approaches for Understanding Gene Regulation Across Life</b></div></div><div text="#000000" bgcolor="#FFFFFF" class=""><div class="" style="text-align: left;"><b class="" style="text-align: center;"><br class=""></b></div>Der Vortrag findet am Donnerstag, dem<span class="Apple-converted-space"> </span><span class="" style="font-style: normal;"><b class="">20<span class="">. Juni </span></b></span><b class="">2019</b><span class="" style="font-style: normal;">,</span><span class=""> um </span><b class="">16 Uhr c.t.</b> im<span class="Apple-converted-space"> </span><b class="">Hörsaal 3.31</b>,<span class="Apple-converted-space"> </span><b class="">Von-Seckendorff-Platz 1</b>, statt.</div><div text="#000000" bgcolor="#FFFFFF" class=""><br class=""><div class="" style="text-align: center;"><b class="">Abstract</b></div><div class="" style="text-align: center;"><b class=""><br class=""></b></div><div class="" style="margin-top: 0px; margin-bottom: 0px;">Gene regulation is the carefully orchestrated process controlling the expression of all of the genes in all of the cells of all living organisms. Gene regulation is highly complex and operates on multiple scales, making it an ideal topic to study using computational approaches such as machine learning. The complexity, scale, and nuances of biology also create unique computational challenges. In this lecture, I will present the results of multiple large-scale computational projects aimed at understanding gene regulation on a global scale.</div><div class="" style="margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="margin-top: 0px; margin-bottom: 0px;">Transcription factor proteins, which are key components of gene regulatory systems, work by binding to specific DNA sequences in the genome to regulate gene expression. I will provide a broad overview of the hundreds of thousands of transcription factors across all forms of life. Evolution has produced a stunning variety of these proteins, and they play key roles in virtually every known biological process. Although DNA sequence binding preferences direct the regulatory activity of transcription factors, they are currently known for only a small fraction of all transcription factors.</div><div class="" style="margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="margin-top: 0px; margin-bottom: 0px;">Broadly sampling transcription factor families across the tree of life using novel computational approaches, we have experimentally determined DNA sequence binding preferences for >2,000 transcription factors encompassing over 50 different families from hundreds of diverse eukaryotes. Using a novel approach we call similarity regression, we have learned rules that can be applied to map this information across different species.</div><div class="" style="margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="margin-top: 0px; margin-bottom: 0px;">Similarity regression is formulated as a regression task where the dependent variable (Y) is a metric of similarity in DNA sequence specificity between pairs of proteins, and the independent variables (the feature vector X) are similarity in amino acid residues at each individual position of the aligned proteins. Collectively, these data form the basis of our widely used Cis-BP database, a relational database consisting of 21 tables and over 100 million entries.</div><div class="" style="margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="margin-top: 0px; margin-bottom: 0px;">I will demonstrate the application of these data for the interpretation of gene regulatory mechanisms and predicting the functional impact of disease-associated non-coding genetic variants. I will also highlight and discuss how modern machine learning approaches such as deep learning are being used for understanding the roles played by gene regulation in human disease.</div><div class="" style="margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="text-align: center; margin-top: 0px; margin-bottom: 0px;"><span class="" style="font-style: normal;"><b class="">*********</b></span></div><div class="" style="text-align: center; margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class="" style="text-align: left; margin-top: 0px; margin-bottom: 0px;">Alle Interessenten sind herzlich eingeladen.</div><div class="" style="text-align: left; margin-top: 0px; margin-bottom: 0px;"><br class=""></div><div class=""><div text="#000000" bgcolor="#FFFFFF" class=""><small class=""><big class="">Mit freundlichen Grüßen</big></small></div></div><div text="#000000" bgcolor="#FFFFFF" class=""><small class=""><big class=""><br class=""></big></small></div><div text="#000000" bgcolor="#FFFFFF" class=""><small class=""><big class="">Prof. Dr. Ivo Große</big></small></div></div></div></div></div></div></blockquote></div></div></div></div></blockquote></div><br class="">
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